LOCUS       NM_181708               3226 bp    mRNA    linear   PRI 05-APR-2024
DEFINITION  Homo sapiens BCDIN3 domain containing RNA methyltransferase
            (BCDIN3D), mRNA.
ACCESSION   NM_181708
VERSION     NM_181708.3
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 3226)
  AUTHORS   Reinsborough,C.W., Ipas,H., Abell,N.S., Gouws,E.B., Williams,J.P.,
            Mercado,M., Van Den Berg,C. and Xhemalce,B.
  TITLE     BCDIN3D RNA methyltransferase stimulates Aldolase C expression and
            glycolysis through let-7 microRNA in breast cancer cells
  JOURNAL   Oncogene 40 (13), 2395-2406 (2021)
   PUBMED   33664453
  REMARK    GeneRIF: BCDIN3D RNA methyltransferase stimulates Aldolase C
            expression and glycolysis through let-7 microRNA in breast cancer
            cells.
REFERENCE   2  (bases 1 to 3226)
  AUTHORS   Jin,M., Wang,L., Zheng,T., Yu,J., Sheng,R. and Zhu,H.
  TITLE     MiR-195-3p inhibits cell proliferation in cervical cancer by
            targeting BCDIN3D
  JOURNAL   J Reprod Immunol 143, 103211 (2021)
   PUBMED   33157501
  REMARK    GeneRIF: MiR-195-3p inhibits cell proliferation in cervical cancer
            by targeting BCDIN3D.
REFERENCE   3  (bases 1 to 3226)
  AUTHORS   Liu,Y., Martinez,A., Yamashita,S. and Tomita,K.
  TITLE     Crystal structure of human cytoplasmic tRNAHis-specific
            5'-monomethylphosphate capping enzyme
  JOURNAL   Nucleic Acids Res 48 (3), 1572-1582 (2020)
   PUBMED   31919512
  REMARK    GeneRIF: CDIN3D is a tRNAHis-specific 5'-monomethylphosphate
            capping enzyme that discriminates tRNAHis from other tRNA species,
            and the structural information presented in this study also
            provides the molecular basis for the development of drugs against
            breast cancers.
REFERENCE   4  (bases 1 to 3226)
  AUTHORS   Reinsborough,C.W., Ipas,H., Abell,N.S., Nottingham,R.M., Yao,J.,
            Devanathan,S.K., Shelton,S.B., Lambowitz,A.M. and Xhemalce,B.
  TITLE     BCDIN3D regulates tRNAHis 3' fragment processing
  JOURNAL   PLoS Genet 15 (7), e1008273 (2019)
   PUBMED   31329584
  REMARK    GeneRIF: Results indicate that tRNAHis interaction with BCDIN3D
            plays non-canonical roles, one of which is to regulate the
            generation of tRNAHis 3' fragments.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3226)
  AUTHORS   Martinez,A., Yamashita,S., Nagaike,T., Sakaguchi,Y., Suzuki,T. and
            Tomita,K.
  TITLE     Human BCDIN3D monomethylates cytoplasmic histidine transfer RNA
  JOURNAL   Nucleic Acids Res 45 (9), 5423-5436 (2017)
   PUBMED   28119416
  REMARK    GeneRIF: BCDIN3D acts as a cytoplasmic tRNAHis-specific
            5-methylphosphate capping enzyme.
            GeneRIF: Human BCDIN3D monomethylates the 5'-monophosphate of
            cytoplasmic tRNAHis in vitro. In BCDN3D-knockout cells, established
            byCRISPR/Cas9 editing, the methyl moiety at the 5'-monophosphate of
            cytoplasmic tRNAHis is lost, and the exogenous expression of
            BCDIN3D in the knockout cells restores the modification in
            cytoplasmic tRNAHis.
REFERENCE   6  (bases 1 to 3226)
  AUTHORS   Yao,L., Chi,Y., Hu,X., Li,S., Qiao,F., Wu,J. and Shao,Z.M.
  TITLE     Elevated expression of RNA methyltransferase BCDIN3D predicts poor
            prognosis in breast cancer
  JOURNAL   Oncotarget 7 (33), 53895-53902 (2016)
   PUBMED   27259993
  REMARK    GeneRIF: BCDIN3D might serve as an important prognostic factor for
            triple-negative breast cancer
REFERENCE   7  (bases 1 to 3226)
  AUTHORS   Byszewska,M., Smietanski,M., Purta,E. and Bujnicki,J.M.
  TITLE     RNA methyltransferases involved in 5' cap biosynthesis
  JOURNAL   RNA Biol 11 (12), 1597-1607 (2014)
   PUBMED   25626080
  REMARK    Review article
REFERENCE   8  (bases 1 to 3226)
  AUTHORS   Xhemalce,B., Robson,S.C. and Kouzarides,T.
  TITLE     Human RNA methyltransferase BCDIN3D regulates microRNA processing
  JOURNAL   Cell 151 (2), 278-288 (2012)
   PUBMED   23063121
  REMARK    GeneRIF: BCDIN3D depletion leads to lower pre-miR-145 and
            concomitantly increased mature miR-145 levels in breast cancer
            cells, which suppresses their tumorigenic phenotypes.
REFERENCE   9  (bases 1 to 3226)
  AUTHORS   Huang,H., Zeng,Z., Zhang,L., Liu,R., Li,X., Qiang,O. and Chen,Y.
  TITLE     Implication of genetic variants near TMEM18, BCDIN3D/FAIM2, and
            MC4R with coronary artery disease and obesity in Chinese: a
            angiography-based study
  JOURNAL   Mol Biol Rep 39 (2), 1739-1744 (2012)
   PUBMED   21625854
REFERENCE   10 (bases 1 to 3226)
  AUTHORS   Ng,M.C., Tam,C.H., So,W.Y., Ho,J.S., Chan,A.W., Lee,H.M., Wang,Y.,
            Lam,V.K., Chan,J.C. and Ma,R.C.
  TITLE     Implication of genetic variants near NEGR1, SEC16B, TMEM18,
            ETV5/DGKG, GNPDA2, LIN7C/BDNF, MTCH2, BCDIN3D/FAIM2, SH2B1, FTO,
            MC4R, and KCTD15 with obesity and type 2 diabetes in 7705 Chinese
  JOURNAL   J Clin Endocrinol Metab 95 (5), 2418-2425 (2010)
   PUBMED   20215397
  REMARK    GeneRIF: Observational study of gene-disease association and
            gene-gene interaction. (HuGE Navigator)
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from CD690663.1, BC053560.1,
            AC131157.4 and BU622810.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 22, 2018 this sequence version replaced NM_181708.2.
            
            Summary: This gene encodes an RNA methyltransferase which belongs
            to the rossmann fold methyltransferase family, and serves as a
            5'-methylphosphate capping enzyme that is specific for cytoplasmic
            histidyl tRNA. The encoded protein contains an S-adenosylmethionine
            binding domain and uses the methyl group donor,
            S-adenosylmethionine. This gene is overexpressed in breast cancer
            cells, and is related to the tumorigenic phenotype and poor
            prognosis of breast cancer. The encoded protein is thought to
            promote the cellular invasion of breast cancer cells, by
            downregulating the expression of tumor suppressor miRNAs through
            the dimethylation of the 5-monophosphate of the corresponding
            precursor miRNAs. [provided by RefSeq, Apr 2017].
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR1660805.55522.1,
                                           SRR1803615.264520.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000333924.6/ ENSP00000335201.4
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-14                CD690663.1         46-59
            15-1496             BC053560.1         1-1482
            1497-2539           AC131157.4         78203-79245         c
            2540-3226           BU622810.1         18-704              c
FEATURES             Location/Qualifiers
     source          1..3226
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="12"
                     /map="12q13.12"
     gene            1..3226
                     /gene="BCDIN3D"
                     /note="BCDIN3 domain containing RNA methyltransferase"
                     /db_xref="GeneID:144233"
                     /db_xref="HGNC:HGNC:27050"
                     /db_xref="MIM:619601"
     exon            1..253
                     /gene="BCDIN3D"
                     /inference="alignment:Splign:2.1.0"
     CDS             20..898
                     /gene="BCDIN3D"
                     /EC_number="2.1.1.-"
                     /note="probable methyltransferase BCDIN3D; BCDIN3
                     domain-containing protein; BCDIN3 domain containing RNA
                     methyltransfease; pre-miRNA 5'-monophosphate
                     methyltransferase"
                     /codon_start=1
                     /product="RNA 5'-monophosphate methyltransferase"
                     /protein_id="NP_859059.1"
                     /db_xref="CCDS:CCDS8790.1"
                     /db_xref="GeneID:144233"
                     /db_xref="HGNC:HGNC:27050"
                     /db_xref="MIM:619601"
                     /translation="MAVPTELDGGSVKETAAEEESRVLAPGAAPFGNFPHYSRFHPPE
                     QRLRLLPPELLRQLFPESPENGPILGLDVGCNSGDLSVALYKHFLSLPDGETCSDASR
                     EFRLLCCDIDPVLVKRAEKECPFPDALTFITLDFMNQRTRKVLLSSFLSQFGRSVFDI
                     GFCMSITMWIHLNHGDHGLWEFLAHLSSLCHYLLVEPQPWKCYRAAARRLRKLGLHDF
                     DHFHSLAIRGDMPNQIVQILTQDHGMELICCFGNTSWDRSLLLFRAKQTIETHPIPES
                     LIEKGKEKNRLSFQKQ"
     exon            254..3226
                     /gene="BCDIN3D"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1458..1463
                     /regulatory_class="polyA_signal_sequence"
                     /gene="BCDIN3D"
                     /note="hexamer: ATTAAA"
     polyA_site      1478
                     /gene="BCDIN3D"
     regulatory      3205..3210
                     /regulatory_class="polyA_signal_sequence"
                     /gene="BCDIN3D"
                     /note="hexamer: AATAAA"
     polyA_site      3226
                     /gene="BCDIN3D"
                     /note="major polyA site"
ORIGIN      
        1 agaggctgtg ttgaggctaa tggcggtgcc cacggaactg gatggaggga gtgttaagga
       61 gaccgcagcg gaagaggaat cgcgagttct ggcacctggc gccgccccgt tcggaaattt
      121 tcctcattat tctcgcttcc accctccgga gcaacggctc cgcctcctgc ccccggagct
      181 gcttcgacag ctctttcctg agagtcccga gaacgggccg attctggggc tcgacgtggg
      241 gtgtaactcc ggggatctga gtgtggctct atacaaacac ttcctctccc tacctgacgg
      301 ggaaacctgc tcagatgcct caagagaatt ccgtctcctc tgctgcgaca tagatccagt
      361 cctggtgaag cgagccgaaa aagaatgtcc ttttcctgat gccttgactt ttatcaccct
      421 ggacttcatg aatcaaagga cccggaaggt tctcttgagc tctttcttaa gccaatttgg
      481 acgttcagtt tttgacattg gcttctgcat gtcaataacc atgtggattc atctgaatca
      541 tggagaccat ggcctatggg agttcctggc ccatctttcc tccctctgcc actacctcct
      601 tgtggagccc caaccctgga agtgttaccg ggcagctgca aggcgtctcc gaaagctggg
      661 actccatgat tttgaccact tccactccct tgccatccga ggtgacatgc ccaatcagat
      721 tgtgcagatc ttgacccagg atcatggcat ggaattaata tgttgctttg gcaacaccag
      781 ttgggacaga agccttctgc tcttcagggc aaaacaaacc atagagactc atccaatccc
      841 tgaatcactg atagaaaaag ggaaagaaaa gaacagatta agtttccaga agcagtgaga
      901 tgggagggca agaagaccaa gaaagatatt gaaagggttt tatattgaga attatgttca
      961 ttctccttaa ttccttaaca atcaggcagc cgcaaaacct ggcaggagct tttggtaaaa
     1021 tgtccaaggc acataattga aagaatcagt atctgttccc cattgtttgg aacaaatctt
     1081 gaggagaatg aatctgtgga gtgatgagct aggatatctg gattgagatg gcctaggaaa
     1141 agtggtcctg gttatgggtt atggagaggg ctgcttttgg ggattattta taaagatcag
     1201 actaggctag tcttaaaata tgtcagttcc tgggctctct gaatcctacc tggtttcttc
     1261 aggcttctgg acttgctagg cctgcctttg ggcaaaacct tagtaattca ggtctggaat
     1321 ggggcttagg aatctatttt ctgttttttt gtttgtttgt ttttgcattc ttctattgta
     1381 atatatacat aaaatttacc attttaaccg tttttaagta cagtttttca gaacgtggaa
     1441 atcccatcaa aaattggatt aaaaaattaa aagataaatt gataattttt ttaaaagtat
     1501 acaattttgt gatattaagt acatttcaca atgaggcatc tatttttaac agctccccca
     1561 gatgattctg aggcaagcag aggtagacca tactttgagt gcttacggtt ccattcagtc
     1621 cttctctatg tatttttcct ggggtgagtt cttccctatg gttttaacaa ctacctacat
     1681 gcggccgggc gcggtggctc acgcctgtaa tcgcagcact ttgggaggcc gaggcgggtg
     1741 gatcacgagg tcaggagatc gagaccatcc cggctaaaac ggtgaaaccc cgtctctact
     1801 aaaaatacaa aaaattagcc gggcgtagtg gcgggcgcct gtagtcccag ctacttggga
     1861 ggctgaggca ggagaatggc gtgaacccgg gaggcggagc ttgcagtgag ccgagatccc
     1921 gccactgcac tccagcctgg gcgacagagc gagactccgt ctcaaaaaaa aaaaaaaaaa
     1981 aaacaaaaaa aaaaacaact acctacatgc ttatggtccc caaatatatt ggtagcccga
     2041 catccacagt tccagactag catttttcct gttttgtcat tatatccctt agttcttagg
     2101 tacatcagaa tcaacagatc tcaaaagcaa gctcactacc ctcattcaaa acctagtcct
     2161 atctcatttg atagtaatca ttgcttatgc tagaaacctc agttgatttt ctcacttaca
     2221 ctcccccaca ttgaaatgct ctcaaagtcc agcagcaaat tctatcaatt acatgtaagt
     2281 ttcattccat acatgtgtcc ggtgcctggt gggaggttcc tatattaaag tcatctacct
     2341 tccatccatt gtctgcctta cagccacagt ttactcatct gtacaacgaa ataacaccac
     2401 tttccttttc ctatgcccaa atgagctaag gatgtgaagg tattttgcag aatatagagt
     2461 gataaagaaa aataaggtgc tattacactg tgtgagcatg ccgcagacca caactgcact
     2521 tgttagactg gaggcttatg agaaaaacat ctcaccttgt agaaaacatg catcttacta
     2581 tctctgataa cttgtttttc aggatgatga agtaataagg agtccagctt cagtgctaca
     2641 gagcatttta aaggaagcag tgttgggagg gagggatatg gaactaatgg aaatgaggct
     2701 agtttatgat ggtctcagtt atcacagtag atacagagct gagtttaccc acaagatctt
     2761 aatttaggaa cactttgaaa ccctgtaacc ctgctgggtg ctctctcctc tcactccacc
     2821 aaggcagcgc acagaaacat acatggggct gtggtaggat gaataatggt cccccaagat
     2881 gtccacctcc tttagcaaaa ggggctttgc aaatgagatt gaggatcttc agatagggag
     2941 attaatctgg atgatcagaa tataccctaa gtgcaatcat cagtgttctt ataataggga
     3001 ggcagaggga gagctgacca cagtaggaga tgtaatgaca aaagcaagag gttggagtga
     3061 tatgaagaag ggctgcaagt caaggaatgc aggtggcttc tagaagttag aaaaagcaag
     3121 aaaatgtatt ctcccctgaa gcctccagaa ggaacagccc tgccaacacc ttgatttcag
     3181 atttaatctc cagagctgta agagaataaa tcagtatttt aaacca
//
